Determination of SNP allelic frequencies using temperature gradient electrophoresis
First Claim
1. A method for determining a rate of single nucleotide polymorphism (SNP) at a first location genomic DNA of a plurality of organisms, comprising:
- providing genomic DNA of each of a plurality of different organisms, the genomic DNA of each organism comprising first and second portions;
preparing, from the genomic DNA of each organism, first and second amplicons, for each organism (i) the first amplicon corresponding to the first portion of the genomic DNA and (ii) the second amplicon corresponding to the second portion of the genomic DNA;
preparing, from the first and second amplicons of the genomic DNA of each organism, a plurality of duplexes, at least some of the duplexes comprising (i) a portion of one of the first amplicons and (ii) a portion of one of the second amplicons; and
subjecting the duplexes to temperature gradient electrophoresis to obtain first electrophoresis data indicative of the rate of SNP at the first location in the genomic DNA of the plurality of organisms.
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Abstract
A method for determining a frequency of single nucleotide polymorphism (SNP) within genomic DNA includes providing genomic DNA of each of a plurality of different organisms. The genomic DNA of each organism includes first and second portions, e.g., first and second strands. First and second amplicons are prepared from the genomic DNA of each organism. The first amplicon corresponds to the first portion of the genomic DNA and the second amplicon corresponds to the second portion of the genomic DNA.
A plurality of duplexes is prepared from the first and second amplicons of the genomic DNA of each organism. At least some of the duplexes include a portion of one of the first amplicons and a portion of one of the second amplicons.
The duplexes are subjected to temperature gradient electrophoresis to obtain first electrophoresis data indicative of the rate of SNP at a first location in the genomic DNA of the plurality of organisms.
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Citations
25 Claims
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1. A method for determining a rate of single nucleotide polymorphism (SNP) at a first location genomic DNA of a plurality of organisms, comprising:
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providing genomic DNA of each of a plurality of different organisms, the genomic DNA of each organism comprising first and second portions; preparing, from the genomic DNA of each organism, first and second amplicons, for each organism (i) the first amplicon corresponding to the first portion of the genomic DNA and (ii) the second amplicon corresponding to the second portion of the genomic DNA; preparing, from the first and second amplicons of the genomic DNA of each organism, a plurality of duplexes, at least some of the duplexes comprising (i) a portion of one of the first amplicons and (ii) a portion of one of the second amplicons; and subjecting the duplexes to temperature gradient electrophoresis to obtain first electrophoresis data indicative of the rate of SNP at the first location in the genomic DNA of the plurality of organisms. - View Dependent Claims (2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23, 24, 25)
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Specification